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Sanger Sequencing Information

Various helps for Sanger Sequencing.

Sanger Troubleshooting

Full Plasmid Sequencing

This section covers the full plasmid sequencing option offered through the core lab. 

Next Gen Sequencing on the AVITI

Various useful tips about sequencing on the Element Biosciences AVITI. 

Ops Manual

Sequencing Software Install

Quick step by step to install Sequencher.

Post Project Survey

SD2C Project Workflow

Core Facility Management

BOS Administrator's Guide

Adding and maintaining core facilities and their users, accounts, and budgets

Vendor Management

BOS Administrator's Guide

Adding and maintaining vendors

User Management

BOS Administrator's Guide

Adding and maintaining BOS users

Receiving and Tracking Orders

BOS Administrator's Guide

Orders

BOS User's Guide

BOS

Policies

Cell Imaging User Training Manual

The rules for using the Cell Imaging Core and for specific instruments.

Image Analysis Software

Cell Imaging User Training Manual

Imaris, Nikon Elements, and Zen.  And some recommendations for other solutions.

Data Collection Form Config

Managers Guide Managing Services

Black Box Sample Processing (BBSP) services for the resource system represent an order for services that have an item quantity and price per item. BBSP Services also include limited sample configuration and data storage ability. Creating a new service A new ...

Creating a Data Collection Form

Managers Guide Data Collection Form Sub-system

Creating a new service A new service can be created by clicking the "Create New Service" button located above the service list search box Newly created services will not exist until saved after initial configuration. This means that some functionality that...

Signature Blocks

Managers Guide Data Collection Form Sub-system

Custom Data Forms can be used to collect approvals from anyone who has an email address. The email address of the person who is supposed to approve the submission will receive an email with an approval link included in it. The can then click on the link and...

Custom Form Configuration Overview

Managers Guide Data Collection Form Sub-system

Custom data collection forms can be configured to collect any desired data including digital signatures from submitters. Title - The title of the form Allow Editing Yes (all) - Allow users to edit form submissions after submission Yes (Recieved...

List Invoices by Billing Month

Managers Guide Accessing Invoices

Click on the "Invoices" button on the top bar Select the Month, Year, and group you want to load invoices for Click the "Get Invoices" button Click the "Print" button on the invoice you want to view OR use the checkbox to select all the invoices you want ...

Search for an Invoice

Managers Guide Accessing Invoices

Click on the "Invoices" button on the top bar Select the type of search you want to use from the dropdown and enter your search criteria. Click the "Get Invoices" button Click the "Print" button on the invoice you want to view OR use the checkbox to selec...

Available Reports and Formats

Managers Guide Generating Reports

Formats Fixed Width Text File - Displayed as page CSV File - Downloaded as file Reports List By default the resource management system provides the following reports to managers and administrators: Master User List - All users accounts in the system...

Auditing Overview

Managers Guide Auditing Charges

Users added as auditors in the system can access the "Site Information Audit" interface to review account access and charges. The site audit interface allows auditors to review accounts, users, and PO numbers by full and partial search Accounts Auditors...

Messaging Overview

Managers Guide Sending Messages / Broadcasts

The system messaging interface can be accessed by clicking on the top bar message button. The messaging interface allows managers to target specific audiences to receive an email messages. This will usually mean targeting the users of a specific group or se...

Create a Black Box Sample Processing Order

Users Guide

The Black Box Sample processing system uses an order wizard that will guide the user through the ordering process. Select an account Enter the number of samples to be submitted (Note: This can affect what processes can be selected on the next step) Select...

Webhook / Interlock Configuration

Managers Guide Managing Services

Overview Occasionally it can be desirable to trigger remote actions in response to actions that occur in the resource system. Use cases include remote logging or instrument interlock control. To support these remote actions the resource system provides HTTP w...

Create a Walkup Order/Event

Users Guide

Walkup services are instruments that are designed to be used for short durations as they are available rather than being scheduled in advance.  When using a walkup service you will be presented with an account selector and start/stop buttons. After selectin...

Walkup Service Configuration

Managers Guide Managing Services

For services that are publicly accessible and do not need to be scheduled in advance the resource system supports "Walkup" events. Rather than creating a reservation event these services create a timed record of use. The system creates a "pending" walkup event...

Tags / Advanced Functionality Configuration

Managers Guide

Overview Some records can be configured with advanced functionality by applying tags in the record tag manager interfaces such as the "Service Tags Manager" for service configuration. Where available it is recommended to use the provided wizard rather than th...

Creating News Items

Managers Guide Managing News

To create a news item go to the Group for which the item is to be created. If you have manager permission on the group you should see the "Add News Item" button above the News Item List. Click the "Add News Item" button and fill out the news item content. ...

Editing News / Pinned News

Managers Guide Managing News

News Items can be edited by clicking on the edit icon located next to the news title. Once edits are complete click the save button to persist the changes. News items cannot be deleted. If you need to hide a news item set it's status to "Hidden" You may...

Creating a Quote

Managers Guide Quote System

To create a quote for a facility a user must be listed as a manager on that facility. Users may be listed as managers on multiple facilities. If so care must be taken to select the correct facility that the quote is being created for. To create a quote use the...

Managing Existing Quotes

Managers Guide Quote System

Quote States Quotes may be in one of 6 states: Creating - All unsent quotes in the process of being built. Pending - A quote that has been emailed to the user and is awaiting their review and approval/rejection. Approved - A quote that has been accepted ...

Module Overview

Managers Guide Quote System

External users often have a need for a PDF quote for services prior to starting a project. Using the "Quotes" module managers can create and send PDF quotes to users for approval.  Workflow Managers create a new quote using the Quote Wizard in the Quotes m...

Initial Setup and Environment Variable Reference

Ops / Deployment

Database Setup If using an external database run the provided bootstrap_mysql.sql file in the target database to setup the database structure. Please note that an administrative user entry will need to be create in the users table. The INSERT code below will ...